NCBI Gene | ![]() |
---|
Relationships |
---|
The ncRNA, XR_001806737.1, is a part of gene, LOC108220506. |
The genetic_marker, MK001018 GSSR-019, is located in gene, LOC108220506. |
The ncRNA, XR_001806738.1, is a part of gene, LOC108220506. |
The ncRNA, XR_001806740.1, is a part of gene, LOC108220506. |
The ncRNA, XR_001806739.1, is a part of gene, LOC108220506. |
The ncRNA, XR_001806743.1, is a part of gene, LOC108220506. |
The ncRNA, XR_001806744.1, is a part of gene, LOC108220506. |
The ncRNA, XR_001806742.1, is a part of gene, LOC108220506. |
The ncRNA, XR_001806741.1, is a part of gene, LOC108220506. |
The ncRNA, XR_001806745.1, is a part of gene, LOC108220506. |

Name | Description |
---|---|
An orange, doubled-haploid, Nantes-type carrot (DH1) was used for genome sequencing. We used BAC end sequences and a newly developed linkage map with 2,075 markers to correct 135 scaffolds with one or more chimeric regions. The resulting v2.0 assembly spans 421.5 Mb and contains 4,907 scaffolds (N50 of 12.7 Mb), accounting for ∼90% of the estimated genome size of 473 Mb. The scaftig N50 of 31.2 kb is similar to those of other high-quality genome assemblies such as potato and pepper. About 86% (362 Mb) of the assembled genome is included in only 60 superscaffolds anchored to the nine pseudomolecules. The longest superscaffold spans 30.2 Mb, 85% of chromosome 4. There are a few different naming schemes for this assembly. First there is the Phytozome genome ID 388: The authors' sequences and gene predictions were also submitted to Phytozome, and can be accessed at this address: https://phytozome-next.jgi.doe.gov/info/Dcarota_v2_0 LNRQ01: These sequences were then assigned GenBank accession numbers starting at LNRQ01000001.1 which corresponds to DCARv2_Chr1, up to LNRQ01004826.1 which corresponds to an unincorporated contig, DCARv2_C10750146. These reside in bioproject PRJNA268187, which is a subproject of umbrella project PRJNA285926. Assembly GCA_001625215.1: The genome assembly was later defined an accession number GCA_001625215.1 for assembly ASM162521v1 which consists of only the 9 chromosome sequences and the plastid assembly, which have accession numbers from CM004278.1 to CM004286.1 for the chromosomes and CM004358.1 for the plastid. The mitochondrial genome was not included because it is classified as an incomplete sequence. RefSeq: The assembly was then later added to RefSeq, and there another new set of identifiers was defined from NC_030381.1 to NC_030389.1 for the chromosomes, and from NW_016089425.1 to NW_016094239.1 for unincorporated scaffolds and contigs. These reside in bioproject PRJNA326436. Note that NCBI substituted different assembled organellar genomes from different genotypes for the RefSeq records. The NCBI Sequence report lists the correspondences between the various naming methods Link to the LNRQ01000000.1 master record at NCBI Raw Reads: Link to SRA accessions used for the genome assembly This genome is available in the CarrotOmics Blast Search | |
The RefSeq genome records for Daucus carota subsp. sativus were annotated by the NCBI Eukaryotic Genome Annotation Pipeline, an automated pipeline that annotates genes, transcripts and proteins on draft and finished genome assemblies. This report presents statistics on the annotation products, the input data used in the pipeline and intermediate alignment results. View the full report at https://www.ncbi.nlm.nih.gov/genome/annotation_euk/Daucus_carota_subsp._sativus/100/ Data from this analysis can be viewed in JBrowse here. |

CGAAAATTCTCATCAAAGATAACTTTATTTTTGGGATTAATCTAGGATCT
TACTCAAATCAACCTAAACCGACAAGCCTAAATTCGTGTTTTCGGGAACT
CGTGTAAAATACACCAACCGGTGCTTCATCGAGGGGCTTCGTTTTGGTTC
TTGCAAGCCATTGTAAGGTATACTCGCCCTCCAGTCTGTGTATGATTTGT
ATGTGGTTTGCTTGTGTCTGTAAATTGAGGATTGCGAGTTGCACTTGCAG
AGTCTCTCTCTCTCGCTCTCGTTCTCGCTCTTTCGCTCGCTTTGTGCTAA
TTGGTTGTGTCTCTGTATATTGCATAGTAAGTTGCAATCGACTCTCTCTG
TCTGTCTGTCTCTCCCTCCACACACATAGTCTTTGTCTCAATGGATTCAG
TAGTATTCTCTCCGAATCCAACTCGGAAGAGGAAGAGAAGACTAGGAAGT
AATTATGTAGGACGAAGACTCTCGTTCAGCGATGATCAAGATCACGAACG
CGTTCCAGAGAGAAGGCGGGGAGGAAACTCAGAAGAGGATGTTTTGGTAC
TGCTGAATTCACTTGACATAGTTCAGAAAATGTGGATGGAACATCAGAAG
AGACTTAGGAGTACCCGTGCTGCACTCAAGGAGGAATGGGACAACAAAAT
ACGCATTCTTATGTCCATGAGATGATACTGGTTTTCGAGAGAGCGGACAA
GAATTATTCACCTGTTTGGGTATAGCTTTGATCATGATCATGTCGAGGGG
CTTCTGATTAAGATTTGATTGGATTTGGTAGCTTAACTATACTAATGTTT
AGTGGAGTAGTAGTATAATTGATCAGTTACCTTGATTGTTGAATACAAAT
TATTAGGGATTTTTATGAATTGTTAGGTGTTAGAAATTTGTAATGTATAA
TATAGAATTGTTTAGTGTTTGTAAACTTGTGTTGTTTGCTGCAATTTTGT
TAACTGCTTGAATGCTGACTTTATATTAAAGCAATTGCAGTTTTCATTTA
TTATCTGTTATATATTTTTTATTTGAGACATTTATATGAATAATGTGTGT
GTCAGAGAGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNATTTCTCCTGACAAAAATAAAATAAAA
TAAATTCGATTATTTCTCCAATATTCTAATACTAATATCATGAATTGAAA
AATCGTTACGGTCACAAGTTACAGCCTACCGGTCGTCGCTTCCACCTCGA
ACGATAGTCTTATAATGCGACTTCTTTTTAACTTTGTGGGGGTGGGGGGC
TGCCTTGTCTGGTGTGCCTGTTGCTTCTATAAGTATTAACTTGGTCTTAA
ACTGCGTATATTCTCAGTTGATTTAGGTTAGCTCGCAAATTGCTCTATAG
ACTACAGTCTATACCTGTGGGATTTTTTAAAGTTAATTATTTTAATAGTA
ACTTTTCTGTGTAGGACGCTTGCTGGAGTTGGAAATGGTTAGCTGAAGAG
GAGAACAAATGACCTTATTTTGGACTCGAGTAATTTCTTTCTGCTATACT
CTAATTATTTTGGTTTGCCGGCTATTATGCTCTGTTCTGGATGACTTCGT
TCAGCACCACATATAGATATGCTTGCCTTATTTGTCTTCAGTTATATACT
ACCATTGTGGTGAGGGCCAATTCATCCCAACTTTATAATTCAACAAAATT
AGGATCCATATAATCTTTAGATGTAGGTACAAGAAGGAAATTTAAGGAAG
GAAATAGATATTATTAAGATTTCATATATTAAAGTTGTTGCTTGTTAAGG
CCTCTTTAAGATTGACAATAAAGATGATTTGTTTGTCAATAAATTTTGGA
TAGAAAAAAATCTCAATTTCCAGACGAAATCTCTCTTTCTTTGTTTTATT
TAATTCTTAATCTCAGAAATTACTGAAGAAAAAATTGAACATTTATTTGA
AGAGTTCACATCAAGAGAGGACATAAAAATTTGCAATAGTCTTGGTCAGC
CAATATGTGTGCATAAAGCCTTTTTGCATCTTTATCTGATGAAGTTAATT
GCAATGCTTAACCCTGTTGAATTTGGAACTTCTGTTTATGATCATGTCTG
ATATCTGAGTACAGCTTTCTCTCAAAGGGGGCACAATTTATTAGTAGAGT
AATAGATCACTTCGGACTATATGTGGATGCAAGTGCTAATAGTTGTAGTA
GTAGTAGGCTAGTAGCTCATTGCTTAAGCTTGTAGATGAAATTAGAGTGT
TTTGTGCATGGTTCACATAAGCATAGTTCTGTAAATTTACCCCTGCTCCT
TGTTTGTGCAATCTAATGATAGTAGCCAAGAAGTGGATGAAGATCTACCC
AATTTCTCTTTCTCTCTTTGTTCAGTAATTCCTCTGGTTAGGTAATCTGT
CTCTTTAACTTCCTTTTAGATTGCCTTCCTAATTCTGTCTGATTCTCCTG
ATTAGTATTAGTGCCTTCCTAATGTCTTAGTGTATTTTCTCTTATTTGTT
AACTAAAGTGCTGAGCGAGTATTGTCTAAATTTGTGATTTATCAAATGTG
CATCTCTGTTTATGGATTTGCTATTTCCGTTTGTTTATAGAAGAGTTTCA
TATGTATTTAAATCATCTAAAACAAACTACTATCTAAGATCTCAGTGTTT
GAATGCAATAATATAGGAATAACAGGTAGCGCTTCTATTCTTAAAATAGA
AGATCAATGCTAGATAAACTTAGATTGGAAGTGTTGGGAAGACTTTATGT
TATGAAGATATTTGTGCTTACGAAGTACTTTTACAGGGCATACACTTGGA
TGCTTTTGTTGATTGAACAGAATTCGTAAGGTTCCCACTATAAAATCAAC
ACAAACTTCAACGTCCGAATTTTCTATCAGACAAAATGTTCTGTTGTCCA
AGCAGGTAATAGTAATATAAAGGCCATGTCATGTTTTTATGATTCTATTT
GTCTTATGTTTAATCAGTAAGTGGCAAGTAATGGTAGGTCATAGTTTTTG
ATTTTATCAGTCTGAACTCTGACGTTTATTTTGCTAGGGGCAAAAATAGA
TTTAATTCATTGCTATTTACCCATATTCGGTTTTCATAATATTGTAGTTT
CAAGAAATATCATGTATTATTTCAACTGGATGATATGATGTAATGCTATT
TGTGGCTATGTAATGATGTATACCCGGCGATCGCGAAACTGCTATGATTT
AGATGGACCATCCGTATTGAGGAACTGAGTGAAGATAATATTTAATCCTT
CATTATTCATTATCTACAAAGTATCATGGTGAGGGATAGAAGGATAGGAT
AGTTGGCTTCTCACCTGTTTAGCTTTGTTCTAGGCTAATATATATGCCAT
ATTACTATTTGAGTTTTATCCCTATCAAATTACTGAAATGATGTCCTTAG
ATTACTGAGAAAATCATTCCATCTTGTATTTCCCCTGACTTGAGGTTTTC
CCATATTACAGCAGGCATTGTTACTTCTATACTTGATTAAATAACTGGAC
AAGGAGCAAACAAACAAGGAACAAGGTAGCAAAGAACGATTTGAAAGTAG
CAAAGAACGATTTGATAGCAAGGAACAAAGGAAATTAGTTGAATTAAAAG
AAAGATTTACCTCCAATAGTTGAATTGTGACTGAGAGACTGAGATTCGAT
TAGGAAATTAGGATAGGGCTTCAATTTCTCGGTCGAAGGTTTGAATCAGA
TATTCCCTCGAATATGTGTCCGCTAATATTCGATTGAGGGAAGTGTACGG
AATTAAATTCGAAGTAATGAACTTGAATTATGTTATTAATAATATTTTTA
TAACCCTATCAATGTCTCGGTTAACAATTCGGATTTCAGTTAACCGTGGC
TAAAAAATCGAAAAACCGAAATTCATATTTGGCTCCCGAAAACCGAACCG
AAATATTAAGTTTGGTTAACTGAACCAAAATTATTTCGGGTATGTGGTGG
TGTTCGGTTAATTAAAAATGCTCACCCTTAGCGACATGTATGCCATAATC
AATACGTTGTACAAAGAACACGAAATAATAATGATTTGTATGCTGTTTAT
ATAATTTAAAATGCAAACATCAAGTTCAAGTGCATTGCTGGAATAATCTG
CATTTATATGCTAGTTTTCATTTTCCCGCATGTATTTCCAGTATCCTAAG
ATGTGTTGTGCTATTGCAAGTAAATACATACCTATACTACATCTATTCTT
TTATAAATATAATATGCTCTCCAGATTCACAATGGGATTTTCTTATAACT
GCTAGCTTTTCTTCTGAATATATTTTCCAGCTTTCTTGAGTAGGCATCAG
TACTGTGTTCCTAAGTTAGTCATTCGAGTTTCTAATGCATCTTGGATTGC
AGATCTGAAGACAATGTTAAAGCTAGTTGAATCAGAGAGCAATACTACAT
GACATTGGAGATGTTTGTTGCAAATGCACACTCATTTAATGACATTGGAG
ATGTTCATGTTCGTTACAGATGCTAGGTGGATGCTTCCTGATGCATGGTA
ATACTACTAAACGTATTTGCAACACTAGCATTGCAGGTTTAGGAATATGA
TATTAGTATTGTTTTGGACAGGTCTGAAAATTTGGAAACTTAATCCACGA
AGGAATGATCGAAGGGGTTCGATTTGAAGTCAACATGTTTTTTAACCAAA
GGGGCAATTAGGATCCGAAGACGGCACTCAAACTTCAAATTCGAAATTCA
ACACATATGTAAATGACTTTGTTGTATACTTTCGCAGTTTTGTATGTCGA
AAATAAGTATCTGACAGTCACATGTAAGCAACAAAGTTTATACTGTGTTT
TGCAAAGTCGAATTAAGAACAAGTTTAGATGAAATAATTAATTTTTTTTA
AATTTAA